Method of preparing botulinum neurotoxin type E light chain

ABSTRACT

The present invention provides a preparation of botulinum toxin light chain type A or E, wherein the preparation is both catalytically active and soluble. Preferably, the preparation consists essentially of amino acid residues 1 through 425 of the botulinum toxin light chain type A. A method of screening inhibitors is also provided, wherein the method comprises exposing a test inhibitor to the preparation of botulinum toxin light chain type A and evaluating the biological activity of the preparation. In another embodiment, a method of providing a catalytically active, soluble preparation of botulinum toxin light chain, type A is provided, wherein the method comprises obtaining an expression vector comprising a DNA sequence encoding amino acid residues 1-425 and expressing a polypeptide.

CROSS-REFERENCE TO RELATED APPLICATION

This application is a divisional of U.S. patent application Ser. No. 11/404,289 filed Apr. 14, 2006, now U.S. Pat. No. 7,465,457 which claims priority to Provisional Patent Application No. 60/671,276 filed Apr. 14, 2005, the entirety of which is hereby incorporated by reference herein.

STATEMENT REGARDING FEDERALLY SPONSORED RESEARCH OR DEVELOPMENT

This invention was made with United States government support awarded by the following agency: NIH AI057153. The United States government has certain rights in this invention.

BACKGROUND OF THE INVENTION

Botulinum neurotoxins (BoNTs) are a group of homologous protein toxins, produced by various strains of Clostridium botulinum and in some cases C. butyricum and C. baratii (Schiavo et al., Physiol. Rev. 80:717-766, 2000). BoNTs elicit the characteristic flaccid paralysis of botulism by blocking acetylcholine release at the neuromuscular junction, through the cleavage of proteins involved in exocytosis. The seven serotypes of BoNTs (A-G) are synthesized and released by the clostridia as inactive ˜150 kDa protein precursors (Sakaguchi Pharmacol. Ther. 19:165-194, 1983; Minton, Curr. Top. Microbiol. Immunol. 195:161-194, 1995; Oguma et al., Microbiol. Immunol. 39:161-168, 1995; Lacy et al., J. Mol. Biol. 291:1091-1104, 1999; Popoff et al., Structural and genomic features of clostridial neurotoxins, in: J. E. Alouf, J. H. Freer (Eds.) Comprehensive Sourcebook of Bacterial Protein Toxins, Academic, London, 1999). The BoNTs are activated by proteolytic cleavage to generate disulfide-linked di-chain toxins (Sakaguchi, supra, 1983; Minton, supra, 1995; Oguma et al., supra, 1995; Lacy et al., supra, 1999; Popoff et al., supra, 1999), which are amongst the most potent biological poisons known with a mouse lethal dose (LD₅₀) of 0.1-1 pg BoNT/g.

The molecular architecture of the BoNTs is conserved and related to their mode of neural intoxication. Heavy chain (HC, ˜100 kDa) consists of a C-terminal 50 kDa domain (HC_(C)) involved in specific binding to the pre-synaptic membrane via gangliosides and a protein co-receptor (Dong et al., J. Cell Biol. 162:1293-1303, 2003). The N-terminal 50 kDa domain of HC (HC_(N)) is involved in the subsequent translocation of the Light chain (LC, 50 kDa) into the cytosol (Schiavo et al., supra, 2000; Sakaguchi, supra, 1983; Minton, supra, 1995; Oguma et al., supra, 1995; B. D. Lacy et al., supra, 1999; Popoff et al., supra, 1999).

BoNT LCs are zinc metalloproteases that cleave one of three proteins, collectively termed SNARE proteins, which are core components of the machinery that mediates small synaptic vesicle (SSV) fusion, which is responsible for the release of neurotransmitters from nerve terminals. BoNT/A and BoNT/E cleave SNAP-25, BoNT/C₁ cleaves syntaxin and SNAP-25, while BoNT/B, /D, /F and /G cleave the vesicle associated membrane protein (VAMP)/synaptobrevin, an integral membrane protein of SSV (Schiavo et al., supra, 2000).

Thus, the BoNTs display exquisite substrate specificity and recognize structurally distinct substrates. This unique substrate specificity may be a model to study substrate recognition by bacterial toxins. However, studies utilizing the holotoxin are constrained by a number of issues, including the intrinsic toxicity of the holotoxin, the lack of tools for genetic manipulation of the clostridia, and the need to activate the holotoxin, a source of inherent error in the analysis of catalytic activity. Studies of other bacterial toxins, such as diphtheria toxin, have overcome these difficulties through the generation of non-toxic catalytic derivatives (Collier, Toxicon. 39:1793-1803, 2001). Similarly, the generation of recombinant, catalytically active LC will allow more detailed structure-function studies of BoNTs.

LC has been expressed as a recombinant protein in E. coli, with varied success. Early attempts to expressed LC in E. coli often resulted in limited expression and poor solubility at concentrations >1 mg/ml (Li et al., Biochemistry 33:7014-7020, 1994; LaPenotiere et al., Toxicon. 33:1383-1386, 1995; Zhou et al., Biochemistry 34:15175-15181, 1995; Kadkhodayan et al., Protein Express. Purif. 19:125-130, 2000). The limited solubility of LC purified from the BoNT, suggests that solubility is an intrinsic property of the LC. Recently, Li and Singh (Li et al., Protein Express. Purif. 17:339-344, 1999) reported the good expression and purification of recombinant LC, which has been used for kinetic and spectroscopic characterization of toxin action.

BRIEF SUMMARY OF THE INVENTION

In one embodiment, the present invention is a preparation of botulinum toxin light chain type A or E, wherein the preparation is both catalytically active and soluble. Preferably, the preparation consists essentially of amino acid residues 1 through 425 of the botulinum toxin light chain type A or residues 1 through 408 of the botulinum toxin light chain E.

In another embodiment, the invention is a method of screening inhibitors comprising exposing a test inhibitor to the preparation of the present invention and evaluating the biological activity of the preparation. In a preferred version the inhibitors target holotoxin translocation and light chain metalloprotease activity of the botulinum toxin. A method of determining the solubility of the preparation is also provided.

In another embodiment, the invention is a method of providing a catalytically active, soluble preparation of botulinum toxin light chain, type A or E, comprising the steps of: (a) obtaining an expression vector comprising a DNA sequence encoding amino acid residues 1-425 of botulinum toxin light chain A or residues 1-408 of botulinum toxin light chain E, and (b) expressing a polypeptide.

In another embodiment, the invention is an antibody preparation, wherein the antibody has been raised against LC/A 1-425 or LC/E 1-408.

Other embodiments of the present invention will be apparent to one of skill in the art after review of the specification and drawings.

BRIEF DESCRIPTION OF THE SEVERAL VIEWS OF THE DRAWINGS

FIG. 1—Purification of recombinant Botulinum type A Light Chain. (A) LC1-448 was purified from E. coli cell paste using a Nickel affinity column as described in the methods. Protein samples (1 μl) were separated by SDS-PAGE and visualized by either staining with Coomassie blue (upper panel) or Western blotting with anti-His₆ antibody (lower panel). Lane 1 represents molecular weight markers. Lanes 2 and 3 represent the clarified E. coli extract prior to and following binding to the Nickel column. Lanes 4 and 5 represent wash fractions (20 mM Imidazole). Lanes 6-10 contain the eluted LC protein. (B) LC 1-448 and the mutant LC C430S were separated by SDS-PAGE in the absence or presence of reducing agent and visualized by staining with Coomassie blue. The arrow indicates the position of the LC1-448 dimer. (C) Cartoon showing the constructs generated in this study. (D) recLC 1-425 was purified from E. coli by a three column strategy. Protein samples were separated by SDS-PAGE and visualized by staining with Coomassie blue. The clarified extract was initially purified as for LC 1-448 using a Nickel affinity column as described in (A). The eluted material was then pooled, dialyzed against 10 mM Tris-HCl, pH 7.8, 20 mM NaCl, 10 mM imidazole and loaded onto a 150 ml column of sephacryl S-200HR. The peak fractions (fractions 33-38) were pooled and applied to a DEAE-sepharose anion exchange column. Bound proteins were eluted with a linear NaCl gradient (20-300 mM).

FIG. 2—Cleavage of GST-SNAP25bHA by LC 1-448. (A) GST-SNAP25HA (5 μM) was incubated for 10 minutes at 37° C. in the presence of various concentrations of LC 1-448 (250 nM-1 nM). The reactions were terminated by addition of chilled 3×SDS-PAGE buffer. Where indicated, LC 1-448 was pretreated with 10 mM EDTA for 30 minutes or heated at 75° C. for 20 minutes prior to use. The cleaved product was analyzed by SDS-PAGE and visualized by staining with Coomassie blue. (B) Graph showing initial velocity of GST-SNAP25HA cleavage by LC 1-448 as a function of substrate concentration. Inset Lineweaver-Burke plot. Kinetic studies were carried out as described utilizing substrate concentrations of 1-25 μM GST-SNAP25HA. Each concentration was run in duplicate and the experiment repeated three times. Data was analyzed using EnzFitter software to determine values for apparent K_(m) and K_(cat).

FIG. 3—Cleavage of GST-SNAP25bHA by LC 1-398. GST-SNAP25HA (2 μM) was incubated for 30 minutes at 37° C. in the presence of various concentrations of LC 1-398 (upper panel) or LC 1-448 (lower panel). Reactions were terminated by addition of chilled 3×SDS-PAGE buffer. Samples were separated on SDS-PAGE gels and visualized by Western blotting to the C-terminal HA-tag.

FIG. 4—Circular dichoism spectrum of recombinant LCs. The CD spectra were recorded as described under Experimental Procedures. [Θ] is the mean residue weight ellipticity. Upper curve represents LC 1-448, middle curve represents LC-1-418, and lower curve represents LC 1-425.

FIG. 5—Alignment of the C-terminal region of the clostridial Neurotoxins. The C-termini were aligned using the ClustalW algorithm and the structures modeled against BoNTA (3bta) using Swiss-PdbViewer. BoNTs are grouped by amino acid similarity. The cysteine involved in disulfide formation is located within the β-sheet. The residues bolded in the left loop are predicted to form intramolecular hydrogen bonds.

FIG. 6 is a graph of an ELISA using antibodies to the light chain of LC/A(1-425). This is a standard assay and can be modified to be more sensitive. As conducted the assay is within a few folds of the sensitivity of the mouse assay for BoNT. The polyclonal antibodies used in this titration experiment were produced by Covance, Inc., using complete Freund's adjuvant as the primary adjuvant and incomplete adjuvant in the booster immunizations.

DETAILED DESCRIPTION OF THE INVENTION

Botulinum neurotoxins (BoNTs) are produced by the spore-forming anaerobic bacterium Clostridium botulinum and are the most lethal biological poisons of man. Seven immunologically distinct BoNT serotypes (designated A-G) have been identified. Accidental exposure to BoNTs, for example through contaminated food, can result in life threatening flaccid paralysis. Further, BoNTs have been weaponized in highly toxic aerosol form, and consequently pose a significant “dual threat”, both to civilian and military populations. As a result, there is an urgent need for therapeutic countermeasures against BoNTs.

BoNT is secreted as a holotoxin composed of two peptide chains that are linked by a disulfide bridge. The heavy chain is responsible for: (1) targeting and binding to surface receptors on nerve terminals; (2) translocation into the neuronal cytosol via the formation of a low pH endosome; and (3) protecting the substrate binding cleft of the light chain prior to neuronal internalization. The light chain, which dissociates from the heavy chain in the low endosomal pH, is released into the cytosol where it acts as a zinc metalloprotease that cleaves SNARE (soluble NSF-attachment protein receptor) proteins: SNAP-25 (synaptosomal-associated protein of 25 kDa), synaptobrevin, and syntaxin. BoNT serotypes A, C, and E cleave SNAP-25; serotypes B, D, F, and G cleave synaptobrevin; and serotype C can also use syntaxin as substrate. Cleavage of SNARE complexes blocks the release of acetylcholine leading to flaccid paralysis.

In one embodiment, the present invention is a method of creating a preparation of soluble and catalytically active botulinum neurotoxin type A light chain. Another embodiment of the invention is a preparation of soluble and catalytically active botulinum neurotoxin type A light chain. Another embodiment of the present invention is a method of screening inhibitors involving exposing inhibitors to the preparation described above. Another embodiment of the invention is an antibody specific for a catalytically active and soluble form of botulinum neurotoxin type A light chain.

Method of Preparing Botulinum Neurotoxin Type A Light Chain or Type E Light Chain. In one embodiment of the invention, one would prepare botulinum neurotoxin light chain type A (LC/A) by obtaining a DNA sequence encoding LC/A and deleting the C-terminal portion of the sequence so that the nucleic acid sequence encodes amino acid residues 1 through 419-447, preferably 1 through 425. For an exemplary sequence, see Dineen, et al., Curr. Microbiol. 46:345-352, 2003. Fragments comprises residues 1-424 and 1-426 are also included and are within the definition of “consisting essentially of residues 1-425.”

Typically, one would use the primers described below at Table 1 of the Example to obtain the coding sequence for LC/A1-425, although primers of other lengths might be useful. One of skill in the art could easily, with reference to published nucleotide sequence for LC/A, construct primers for other embodiments of the present invention within the scope of the claims. For example, one may wish to construct LC/A1-424 or LC/A1-426.

Preferably, the PCR product of these primers would be ligated into a cloning vector, such as the TA cloning vector pGEM-T™ (Promega) and sequenced to conform the correct sequence. The insert is typically amplified and subcloned into an expression vector, such as the modified pET15b (Novagen) expression vector described in the Examples.

The Examples below describe a typical expression and purification of BoNT LC/A. For example, the Examples below describe expression of the protein in E. coli BL-21RIL(DE3) cells. An RIL strain is preferred for high expression of genes with AT sequences. RIL has tRNAs that recognize the AT codons of arginine, isoleucine and leucine (RIL).

Typically, the catalytic activity of LC/A can be demonstrated as described below in the Example. For example, the examples below show that the endopeptidase activity of the recombinent LC proteins are assayed in the mixture containing GST-SNAP 25 (described below). One may also wish to use the commercially available substrate SNAPtide™ (List Biological Laboratories), a synthetic 13 amino acid peptide that contains native cleavage site for BoNT/A. By “catalytically active” we mean that the peptide preparation of the present invention is capable of at least 90% of the catalytic activity of the peptide preparation shown in the Examples.

We show in the Examples below that LC/A1-425 has superior solubility, catalytic activity and stability. By “suitable solubility” we mean that the protein is soluble in the absence of salt or glycerol and remains soluble at 4° C. for at least two weeks with minor degradation (<10%). Table 2, below, discloses that LC/A1-425 can be obtained at least 40 mg/L culture and has suitable solubility and activity.

In another embodiment, the present invention is the product of the method described above.

In another embodiment, the present invention is preparation of LC/A that is both soluble and catalytic. In a preferred version of the present invention, the preparation comprises LC/A1-425. The preparation is both catalytically active and soluble, as defined above. In examples below, we disclose total LC/A1-425 at 40 mg/L culture after extraction and at least 33 mg/L culture after ion exchange purification.

The present invention is also a stable, soluble and catalytic preparation of LC/E wherein the C-terminal 30 amino acids are deleted. The full length LC/E is 438 amino acids. Therefore, a preferred version of the present invention consists essentially of serotype E light chain residues 1-408. By “consisting essentially of” we mean that fragments consisting of residues 1-407 and 1-409 are included.

Screen for novel small molecule inhibitors of botulinum neurotoxins. In another embodiment, the present invention is an assay used to screen LC/A or LC/E proteolytic activity using the preparations of the present invention. Preferably, this assay would use a preparation of LC/A1-425 or LC/E1-408. Preferably, the assay is a high-throughput assay.

Previous research to identify peptide and small molecule inhibitors of BoNT serotype A (BoNT/A) has targeted both holotoxin translocation and light chain (LC/A) metalloprotease activity. LC/A has been shown to be inhibited by mM concentrations of the known protease inhibitors captopril, lysinopril, and enalapril. Moreover, several small molecular weight peptides have been generated which block catalysis in the μM range. Most recently, a screen of the National Cancer Institute (NCI) Diversity set identified several compounds possessing >50% inhibition (at 20 μM concentration). Specifically, compounds structurally related to 7-chloro-4-aminoquinoline significantly inhibited LC/A at concentrations of <20 μM.

The Examples below describe an suitable throughput assay using a commercially available substrate SNAPtide™. One could of course substitute other substrates in the assay.

In a basic version of the assay, one would expose a test compound to a preparation of LC/A that is both catalytically active and soluble. In a preferred version of the assay, the LC/A preparation would comprise LC/A1-425. One would examine the catalytic activity of the LC/A preparation after exposure to the test compound. A lowering of catalytic activity would indicate that the test compound was acting as an inhibitor.

Antibody Compounds. In another embodiment, the present invention is a monoclonal or polyclonal antibody specific for the peptides of the present invention, preferably LC/A1-425. This antibody may be prepared commercially (for example, Covance, Inc.). There are multiple suitable methods for preparing mono- and polyclonal antibodies. The antibody preparation could have application as immunotherapy against botulism, as a medicinal agent to prevent diffusion of botulinum neurotoxin, as a reagent for assay of botulinum neurotoxin, and as a reagent for use in molecular biology.

EXAMPLES

Botulinum neurotoxin type A (BoNT/A) is the etiological agent responsible for botulism, a disease characterized by peripheral neuromuscular blockade. BoNT/A is produced by Clostridium botulinum as a single chain protein that is activated by proteolytic cleavage to form a 50 kDa Light chain (LC, 448 amino acids) and a disulfide bond linked 100 kDa Heavy chain (HC, 847 amino acids). Whilst HC comprises the receptor binding and translocation domains, LC is a Zn²⁺-endopeptidase that cleaves at a single glutaminyl-arginine bond corresponding to residues 197 and 198 at the C-terminus of SNAP-25. Cleavage of SNAP-25 uncouples the neural exocytosis docking/fusion machinery.

LC/A (LC1-448) and several C-terminal deletion proteins of LC/A were engineered and expressed as His-tagged fusion proteins in E. coli. LC 1-448 was purified, but precipitated upon storage. Approximately 40% of LC1-448 was a covalent dimer due to the formation of inter-chain disulfide bond formation at Cys430. Conversion to Cys430 to Ser abolished dimer formation of LC1-448, but did not improve solubility. Three C-terminal deletion peptides were engineered; LC1-425 and LC1-418 were expressed and could be purified as soluble and stable proteins, whilst LC1-398 was soluble, but not stable to storage. Kinetic studies showed that LC 1-448 and LC-1-425 efficiently cleaved GST-SNAP25 and the fluorescent substrate SNAPtide™, while LC 1-418 catalyzed the cleavage of both the SNAP25 and the fluorescent substrate SNAPtide™ with a similar K_(m), but at a 10-fold slower k_(cat). Thus, regions within the C terminus of LC/A contribute to solubility, stability, and catalysis.

Subcloning Experiments

LC derivatives. Total genomic DNA from C. botulinum was used as a template to amplify full length LC/A (1-448), using the following primers: 5′-AGAGAGCTCATGCCATTTGTTAATAAACAA-3′ (SEQ. ID. NO: 1) and 5′-AGAGGATCCTAATGCCTTATTGTATCCTTT-3′ (SEQ. ID. NO: 2). The PCR product was ligated into the TA cloning vector, pGEM-T (Promega), and sequenced to confirm the correct sequence. pGEM-LC/A was subsequently used as a template to generate expression constructs. DNA encoding LC1-448, LC1-425, LC1-418 and LC1-398 were amplified, using the indicated primers (Table 1) and subcloned into a modified pET15b (Novagen) expression vector that contained NdeI, SacI, and BamHI sites within the multicloning site for the generation of His-fusion proteins. DNA encoding pLC1-448(C430S) was generated by site directed mutagenesis of pLC1-448 using the QUIKCHANGE KIT (Stratagene) as described by the manufacturer.

Amplifications were performed in 100 μl reactions containing 20 mM Tris-HCl (pH 8.4), 50 mM KCl, 5 mM MgCl₂, 200 μM dNTPs, 50 ng template DNA, 100 pmoles of each primer, and 1 unit of Platinum Taq polymerase (Invitrogen). Reactions were heated to 95° C. for 10 minutes to activate the polymerase and then cycled 30 times with 1 minute denaturation at 95° C., 1 minute annealing at 58° C., and 2 minutes extension at 72° C. (10 minutes in last cycle). Products were purified using the Geneclean Spin Kit to remove excess primers, digested with the appropriate restriction endonucleases, and purified by agarose gel electrophoresis prior to ligation into the expression vector.

SNAP-25HA. pGEX-SNAP25bHA was constructed by PCR amplification of a cDNA (human SNAP25b) using the following primers: 5′-CCCGAGCTCATGGC CGAGGAC GCA GAC-3′ (SEQ. ID. NO: 3) and 5′-GGG GGA TCC CTA CAA GCT GGC GTA GTC GGG CTC GCT GTA GGG GTA ACC ACT TCC CAG CAT CTT TGT TGC-3′ (SEQ. ID. NO: 4) and the SacI-BamHI sites of pGEX-2T. This construction introduced the 11 amino acid HA epitope at the C terminus of SNAP-25.

Expression and Purification of BoNT LC/A. Vectors encoding LC/A, or various LC/A derivates, were transformed into E. coli BL-21 RIL (DE3) cells (Stratagene) due to superior expression of LC/A as compared to expression in E. coli BL-21. E. coli BL-21 RIL (DE3) containing LC/A expression plasmids were grown overnight on L-agar with 100 μg/ml ampicillin and 50 μg/ml chloramphenicol. Cells were inoculated into fresh LB medium containing antibiotics, grown at 30° C. for 2.5 hours at 250 rpm to OD₆₀₀ ˜0.6, induced by addition of 1 mM IPTG, and then cultured at 250 rpm overnight at 16° C. Cells were grown in 2 liter of Luria Broth (5×0.4 L cultures), and harvested cells lysed by French Press in 40 ml ice cold buffer A (10 mM imidazole, 500 mM NaCl, 20 mM Tris-HCl, pH 7.9) containing EDTA-free protease inhibitor cocktail (Sigma) and 2.5 μg/ml DNAse I and 2.5 μg/ml RNAse I. The lysate was clarified by centrifugation at 20,000×g for 30 minutes at 4° C. and subsequently passed through a 0.45 μm filter. The filtered lysate was loaded onto a column of Ni-NTA resin (5 ml bed volume) that had been equilibrated with 25 ml buffer A. The column was washed with 25 ml buffer A followed by 15 ml buffer B (20 mM imidazole, 500 mM NaCl, 20 mM Tris-HCl, pH 7.9) and then eluted with 10×1 ml buffer C (250 mM imidazole, 500 mM NaCl, 20 mM Tris-HCl, pH 7.9). Fractions were analyzed by 13.5% SDS-PAGE (FIG. 1A). Peak fractions were pooled, diluted into glycerol (50% v/v), and stored at −20° C.

LC1-425 and LC1-418 were further purified as follows. Peak fractions from the Nickel column were pooled and dialyzed for 12 hours against 10/20/10 buffer (10 mM Tris-HCl, pH 7.8, 20 mM NaCl, 10 mM Imidazole) and clarified by centrifugation at 12,000×g for 20 minutes at 4° C. The soluble dialyzed fraction contained >95% of the total LC and was subjected to gel-filtration on a Sephacryl S200 HR, 150 ml column equilibrated in 10/20/10 buffer and 2 ml vol were collected. Peak fractions as determined by SDS-PAGE were subjected to anion exchange chromatography (DEAE-sephacel, 10 ml) and bound proteins eluted with a linear gradient of 20-300 mM NaCl. Peak fractions containing LC were pooled and dialyzed overnight into 20 mM K⁺-HEPES, pH 7.4. Purified proteins were then either stored at −20° C. in the presence of 50% glycerol v/v at ˜7.5 mg LC/A/ml or undiluted at −80° C.

Cleavage of SNAP25bHA. Endopeptidase activity of the recombinant LC proteins was assayed in 40-μl reaction mixture containing: indicated concentrations of GST-SNAP25bHA and 20 nM LC/A. After incubation in reaction buffer A (20 mM K⁺-HEPES, pH 7.4, 150 mM potassium glutamate) at 37° C., samples were withdrawn at various times and reactions were stopped by adding SDS-PAGE sample buffer. The products were resolved by electrophoresis on a 10% SDS-PAGE gel and stained with Coomassie Blue. The cleavage of SNAP-25HA was determined by densitometric scanning of the bands. Kinetic constants were derived using the EnzFitter program.

Cleavage of SNAPtide™ SNAPtide™ (FITC/DANCYL) is a synthetic 13-amino acid peptide that contains native cleavage site for BoNT/A (List Biological Laboratories). SNAPtide™ is a quenched fluorescent substrate peptide that is based on fluorescence resonance energy transfer (FRET). Initially the N-terminal fluorophore, FITC, is quenched by the C-terminal chromophore, DANCYL. Cleavage of SNAPtide™ releases the fluorophore and fluorescent enhancement was measured. Assays were carried out in a 50-μl reaction mixture containing various concentrations of SNAPtide™ and 100 nM LC/A. After incubation at 37° C. for indicated times, reactions were terminated by transfer to ice and addition of a 100 μl EDTA solution (10 mM Tris, 100 mM EDTA, pH 8.0). Samples were left to equilibrate for 30 minutes on ice prior to measurement of fluorescence at 523 nm. Control wells containing only SNAPtide™ were used to determine background fluorescence.

Circular Dichroism Analysis. The recombinant LC proteins (0.5 mg/ml) were diluted into phosphate buffered saline, pH 7.4. The choice of PBS as buffer was necessary due to stability issues in the presence of low salt conditions. The CD spectrum was recorded between 190 and 250 nm at 22° C. in a 1-mm path cuvette using a Jasco J710 spectropolarimeter. The scanning speed was set at 10 nm/min and the response time was 4 seconds. Buffer contribution was corrected.

Results

While expression of LC/A in E. coli has been demonstrated (Y. Li, et al., supra, 1994; H. F. LaPenotiere, et al., supra, 1995; L. Zhou, et al., supra, 1995; S. Kadkhodayan, et al. supra, 2000; L. Li and B. R. Singh, supra, 1999), poor solubility has limited the use of these constructs for biochemical and structural analysis. The ability to engineer soluble derivates of the S1 subunit of Pertussis toxin that were amenable to biochemical and biological analysis prompted a characterization of the C terminus of LC/A to determine if specific regions were responsible for the observed poor solubility of LC/A. C-terminal deletions were engineered based upon the structure and biochemical properties of BoNT and then characterized for solubility, catalysis, and stability.

Limited solubility of recombinant, full length LC/A (LC1-448). E. coli BL-21(DE3)(pET LC/A) had a slow growth rate at 37° C. relative to control cells and produced minimal amounts of LC/A (<0.5 mg/L of culture) after a 5 hours induction with 1 mM IPTG (Data not shown). The reason for the observed slow growth may be due to the AT rich codon usage within the LC/A open reading frame. The slow growth of E. coli containing LC expression plasmids has been reported (L. Li and B. R. Singh, supra, 1999).

Conditions were developed to allow high level expression of the fusion protein. Expression was optimal in a strain of E. coli supplemented with the rare E. coli arginine, isoleucine and leucine codons (BL-21 RIL). Induction at 16° C. for 18 hours allowed stable accumulation of LC 1-448 to a concentration of 25-30 mg/l culture. Furthermore, induction at 16° C. resulted in greater protein stability relative to 30° C. or 37° C. A typical purification from 2-1 culture yielded ˜60 mg LC 1-448 which was >90% pure as determined by SDS-PAGE/densitometry (FIG. 1A). Western blot analysis identified many of the lower molecular weight bands as C-terminal degradation products (FIG. 1A, lower panel). Degradation could be largely inhibited by addition of metal chelators such as EDTA, suggesting breakdown was due to a metalloprotease activity. At this time, however, we cannot differentiate between an endogenous protease and autocatalytic processing of the light chain as reported by Ahmed (Ahmed et al., J. Protein Chem. 19:475-487, 2000).

LC 1-448 was unstable in solution forming a precipitate within 24 hours at 4° C. or immediately upon freeze-thaw. Dialysis into a range of low-high salt buffers did not improve solubility. Precipitation of the light chain has been reported previously and is hypothesized to result from protein misfolding (Kadkhodayan et al., supra, 2000). Stabilization of the protein was achieved by addition of glycerol to 50% v/v or by storage at low concentrations (<0.5 mg/ml). Previous studies in which the light chains of BoNT/B and BoNT/E were expressed in E. coli reported the formation of disulfides (Hanson et al., Nat. Struct. Biol. 7:687-692, 2000; Mira et al., Biochemistry 40:2234-2242, 2000). We therefore tested whether protein precipitation was due to the presence of disulfide linked light chain. Approximately 40% of the protein purifies as a disulfide linked dimer (FIG. 1B). Mutation of cysteine 430 to serine (LC C430S) abolished dimer formation, but did not improve protein solubility.

Sequential deletion of the C terminus of LC/A affects solubility and stability. Analysis of the primary amino acid sequence of LC indicated the C-terminal region was rich in both hydrophobic and charged residues and included a B-strand between residues 425 and 432. A series of C-terminal deletions of LC/A were engineered to define regions that contribute to solubility, stability, and catalysis (FIG. 1C). The initial deletion peptide was engineered to terminate LC/A after F425, yielding LC 1-425, which removed a hydrophobic β-sheet from the C terminus. Two longer deletions were engineered to terminate LC/A after N418 (LC 1-418), which corresponded to a similar deletion peptide that has been engineered within the light chain of Tetanus toxin (O. Rossetto, et al., Toxicon. 39:1151-1159, 2000) and after A398 (LC 1-398), which eliminated a loop region that included residues that hydrogen bonded to residues within the N terminus of LC/A.

LC 1-425 was expressed at higher levels than fall length LC/A or the other C-terminal deletion peptides (˜40 mg/l) and upon purification by gel filtration and ion exchange chromatography could be concentrated to >40 mg/ml (FIG. 1D). The protein was soluble in the absence of salt or glycerol and remained soluble at 4° C. for several weeks with minor degradation. LC 1-418 was expressed at levels similar to the full length protein (LC 1-448) and was also soluble when concentrated to >40 mg/ml. Relative to the other C-terminal deletion peptides, LC 1-398 was expressed at low levels and was extensively degraded upon purification (Data not shown). The expression levels, solubility and stability of the various constructs are summarized in Table 2. Based on these findings, insolubility of the LC is attributable to the C-terminal β-sheet that is involved in association with the HC within the holotoxin.

Snap25-HA is a substrate target for LC/A. It is difficult to detect the cleavage of the C-terminal 9 amino acid residues of SNAP-25 by LC/A as a shift in apparent molecular mass by SDS-PAGE and typically the cleavage product is determined indirectly by Western blot analysis to measure the loss of immunoreactivity by an antibody that recognizes the C-terminus of SNAP25 or directly by HLPC detection of the cleaved peptide (Sukonpan et al., J. Pept. Res. 63:181-193, 2004). Singh and coworkers described a C-terminal His-₆-SNAP25 that was reported to allow detection of a cleavage product (Li et al., supra, 1999). To facilitate detection of the cleavage of GST-SNAP25 by LC/A, an HA epitope was engineered at the C terminus of GST-SNAP25 which effectively changed the cleavage product of LC/A to remove a peptide of 20 amino acids. The use of GST-SNAP25 as a substrate for BoNTs does not interfere with the catalytic activity of the toxin (Hanson et al., supra, 2000). The cleavage of GST-SNAP25 by LC/A was readily detected by SDS-PAGE of the reaction mixture (FIGS. 2A and B). Western blotting demonstrated that cleavage by LC/A removed the C-terminal HA-tag, but not the N-terminal GST-tag. The calculated K_(m) and K_(cat) for GST-SNAP25 were comparable to previous reports that determined the kinetic parameters of LC/A on SNAP25 (Zhou et al., supra, 1995; Kadkhodayan et al., supra, 2000; Binz et al., Biochemistry 41:1717-1723, 2002, Li et al., Biochemistry 39:2399-2405, 2000). GST-SNAP25 was used as a target to characterize the enzymatic activity of LC/A and the C-terminal deletion peptides.

Catalytic activity of LC/A and C-terminal deletion veptides. Kinetic studies were subsequently performed using the mutant LCs, and for comparative purposes BoNT/A holotoxin. Cleavage of GST-SNAP25 by BoNT/A holotoxin was complicated by the requirement for activation prior to assay which may in part explain the variability in data generated with the holotoxin (Table 3). The presence of DTT in the assay did not affect the cleavage of SNAP25-HA by LC 1-448. The catalytic efficiency of LC 1-448 was found to be ten-fold greater than the holotoxin, which was due to a lower K_(m) and higher reaction velocity. A previous report estimated the catalytic efficiency as within two-fold of the value for LC 1-448 (Cai et al., Biochemistry 40:4693-4702, 2001). Thus, the recombinant LC appears to have similar kinetic properties for SNAP25 cleavage as the holotoxin.

In a linear velocity reaction, the catalytic efficiency of LC 1-425 was similar to the full length LC1-448, while LC 1-418 was reduced approximately 10-fold (Table 3). The reduced rate of cleavage of SNAP25 was not due to lower substrate binding, since the K_(m) for substrate by LC 1-448 and LC 1-418 were within 2-fold. To test whether deletion of C-terminal residues primarily affects substrate recognition or catalysis a small 13-mer peptide substrate was tested (SNAPtide™). As observed for SNAP25, the K_(m) for the peptide was similar among the LC derivatives, but the rate of cleavage of the peptide was approximately 10-fold slower with LC 1-418 than LC 1-448 (Table 3). This implicated a role for the C-terminus in the catalytic activity of the toxin. LC 1-398 was poorly expressed and subject to extensive degradation. This made the determination of SNAP25 cleavage by SDS-PAGE impractical. However, by Western blotting against the HA-tag the rate of SNAP25 cleavage was estimated to be ˜10-fold slower than LC 1-448 (FIG. 3). The reduced catalytic rate of LC 1-398 was also observed, using the SNAPtide™ peptide as substrate. Due to poor protein stability, the kinetic parameters for LC1-398 were not determined.

CD spectra of LC/A and C-terminal deletion peptides. The secondary structure of globular proteins is probed by far-UV CD spectral analysis. The secondary structure of the LC derivatives was determined in 150 mM NaCl to stabilize the proteins in solution during the assay. The far-UV CD spectra corresponding to the recombinant LCs are dominated by strong minima at 209 nm and 220 nm, indicating their highly helical nature (FIG. 4).

Discussion

Botulinum neurotoxin type A (BoNT/A) is the most toxic protein known, with mouse LD₅₀ values of <1 pg/g. As such, study of BoNT/A has been limited by the ability to safely produce and handle large quantities of the protein. One approach in working with protein toxins is to develop variants which harness a biological/biochemical property, whilst eliminating that overall toxicity of the molecule. Isolation of non-toxic Light chain (LC/A) can be achieved through one of two approaches. The first involves the efficient separation of LC/A from the Heavy chain (HC) through chromatographic separation, a procedure which exposes the worker to significant health risk. The second approach is to express a recombinant form of the protein which can be purified to homogeneity, but was insoluble at elevated concentrations, which complicate biophysical characterizations and compromises catalytic and spectroscopic analysis.

Expression of recombinant forms of LC/A has been reported, with variable success. Microinjection of Aplysia californica cholinergic neurons with mRNA encoding LC/A or LC/A^(Y9-L415) efficiently blocked neurotransmission (Kurazono et al., J. Biol. Chem. 267:14721-14729, 1992). While protein generated by in vitro translation were susceptible to degradation and internal initiation of translation, expression of LC/A in E. coli is complicated by solubility and stability. A maltose binding protein-LC/A fusion protein was produced in E. coli at 5-10 mg/l, but cleavage of the fusion protein yielded 0.5 mg/l of purified LC/a (Zhou et al., supra, 1995). LC/A was also expressed in E. coli with a C-terminal His-Tag, N-terminal GST- and C-terminal His-Tag or a His-Tag on both ends of the protein (Kadkhodayan et al., supra, 2000). The first two constructs were found to be unstable in solution, forming aggregates at 4° C. within a few days. The third construct displayed greater stability and could be concentrated to 6-12 mg/ml without precipitation. However, the catalytic efficiency of the LC/A was ˜10-fold lower than that of the holotoxin. Li and Singh (Li et al., supra, 1999) reported expression of LC/A at ˜20 mg/l which could be purified and cleaved SNAP-25 at a rate similar to the holotoxin. This was used to measure the spectroscopic and catalytic properties of the light chain and mutated forms of the light chain. In the current study, full length LC/A was also produced at similar expression levels, but precipitated upon freeze-thaw or when concentrated above 1 mg/ml, which limited its utility for structure-function studies. Deletion mapping identified β-strand comprising residues 425-432 as responsible for the limited solubility of LC/A, while residues 398-425, which intra-chain H bond, were required for LC/A catalysis and stability. Thus, LC1-425 is the minimal catalytic form of LC/A.

In a recent report Fernández-Salas et al. (Fernández-Salas et al., Proc. Natl. Acad. Sci. USA 101:3208-3213, 2004) identified a di-leucine motif within the C-terminus of LC/A (E ⁴²⁴FYKLL ⁴²⁹) (residues 424 to 429 of SEQ ID NO:14), which contributed to efficient targeting of LC/A to the plasma membrane. The role of the di-leucine motif in catalysis was unclear, since substitution of the leucine residues to arginine had limited effects on the cleavage of SNAP25 in PC-12 cells, while recombinant forms of this protein showed a 26-fold reduction in catalytic activity. Moreover, a C-terminal deletion, equivalent to LC 1-418, showed a ˜80-fold decrease in activity compared to a ˜10-fold decrease in this study. It is possible that the reduced catalytic activity was a due to solubility and stability issues with the recombinant proteins.

Alignment of the C terminus of the light chains of the BoNTs showed only limited primary amino acid identity, while structures of this region from BoNT/A (Lacy et al., Nat. Struct. Biol. 5:898-902, 1998) and Bont/B (Swaminathan et al., Nat. Struct. Biol. 7:693-699, 2000) indicate the C terminus is composed of an ordered loop followed by a hydrophobic β-sheet (FIG. 5). In the holotoxin, the β-sheet is linked to the heavy chain (HC) through a conserved disulfide bond and extensive hydrogen bonding. Exposure of this region in isolated LC, in the absence of the HC, may contribute to the insolubility of full length LC in solution. Several findings support this hypothesis; purified LC forms intermolecular disulfides (this study), addition of chaperones (HC, BSA) increases the solubility of LC/A (Sukonpan et al., J. Pept. Res. 63:181-193, 2004), deletion of this region enhances protein solubility (this study), and a recombinant LC-HC_(N) fusion (1-871) is stable and soluble in solution (Chaddock et al., Protein Express. Purif. 25:219-228, 2002). From the alignment of the C termini of the BoNTs, it appears that several subgroups are identified. Thus there is the possibility of inter chain association between the LC and HC of domains of the various BoNTs within each subgroup.

Deletion mapping of the C terminus of clostridial toxins has resulted in conflicting data, a minimal region (LC 1-425) was determined to be required for optimal catalysis. Deletion of C-terminal residues preceding F425 has a small effect on substrate binding as judged by K_(m) values, but causes a large decrease in catalytic efficiency. We propose that the observed decrease in catalytic efficiency is due to loss of tertiary structure. In BoNT/A and BoNT/B each loop that precedes F425 forms extensive intramolecular hydrogen bonds. These bonds stabilize the structure of both the loop region and the catalytic core. Deletions beyond F425 may therefore reduce catalysis by disrupting the intramolecular bonds required for correct orientation of the active site.

Expression of the full length LC of tetanus toxin (TeNT), residues 1-457, in E. coli was also possible, but underwent proteolysis resulting in cleavage of C-terminal residues (Fairweather et al., FEBS Letts. 323:218-222, 1993). The recombinant protein could associate with purified HC, and displayed catalytic activity, albeit at a level of 10-15% relative to the native LC purified from C. tetani. Further analysis revealed that the reduced activity was a result of removal of the C terminus, implicating a role for this region in catalysis. Subsequently, Montecucco et al. (Rosetto et al., supra, 2000) reported the expression of TeNT LC in E. coli as a GST fusion protein was unstable, purifying as three distinct polypeptides. A deletion protein, sLC (1-427) by contrast was found to be highly stable and soluble for several weeks at 4° C. The activity of sLC was higher than native LC and recombinant LC. While the molecular basis for the observed differences was not determined, alignment of the LCs of TeNT and the BoNTs (FIG. 5) suggested that the toxins have similar structure-function properties at their C termini.

The availability of active, soluble and stable derivatives of LC/A provide opportunities to better define substrate recognition, and aid in the development of small molecular weight inhibitors. The properties of LC 1-425 make it amenable to high throughput applications which are required for efficient screening of inhibitors. Moreover, the solubility of the protein should aid in the generation of co-crystals of inhibitors and LC and allow structural analysis of the extended BoNT active site.

TABLE 1 Primers used for generation of LC and LC derivatives. Construct Primer set LC 1-448 5′-AGAGAGCTCATGCCATTTGTTAATAAACAA-3′ (SEQ. ID. NO: 1) 5′-AGAGGATCCTTACTTATTGTATCCTTTATCTAA-3′ (SEQ. ID. NO: 5) LC 1-425 5′-AGAGAGCTCATGCCTTTGTTAATAAACAA-3′ (SEQ. ID. NO: 6) 5′-AGAGGATCCTTAAAATTCAAACAATCCAGTAAA-3′ (SEQ. ID. NO: 7) LC 1-418 5′-AGAGAGCTCATGCCATTTGTTAATAAACAA-3′ (SEQ. ID. NO: 8) 5′-AGAGGATCCTTAATTTTTTAGTTTAGTAAAATT-3′ (SEQ. ID. NO: 9) LC 1-398 5′-AGAGAGCTCATGCCATTTGTTAATAAACAA-3′ (SEQ. ID. NO:10) 5′-AGAGGATCCTTATGCTAAATTTGTATTTCTTAA-3′ (SEQ. ID. NO: 11) LC C430S 5′-GAATTTTATAAGTTGCTAAGTGTAAGAGGGATAATAACTTCT-3′ (SEQ. ID. NO: 12) 5′-AGAAGTTATTATCCCTCTTACACTTAGCAACTTATAAAATTC-3′ (SEQ. ID. NO: 13)

TABLE 2 Properties of LC/A and C-terminal LC/A deletion peptides. ~Yield Protein (mg/l culture) Stability Solubility Activity LC 1-448 25 + +/− ++ LC C430S 25 + +/− ++ LC 1-425 40 + +/+ ++ LC 1-418 25 + +/+ + LC 1-398 10 − +/+ +

TABLE 3 Purification of LC1-425. Total LC 1-425 Total protein Purification Yield LC 1-425 (mg/l culture)^(a) (mg/l culture)^(b) Factor^(b) (%) Extraction 40 556 1 100 Ni-NTA 36 41 14 90 Gel filtration 33 36 15 83 Ion exchange 33 33 17 83 ^(a)Estimated from band intensity on SDS-PAGE ^(b)Based on total protein content

TABLE 4 Kinetic parameters for LC/A and C-terminal deletion peptides of LC/A. GST-SNAP25Bha SNAPtide Peptide V_(max) K_(cat)/K_(m) Relative Protein (μM/min/mg) K_(m) (μM) K_(cat) (sec⁻¹) (sec⁻¹ μM⁻¹) K_(m) (μM) rate^(a) LC 1-448 4.6 +/− 0.2 14.2 +/− 0.3 3.8 0.27 54.1 +/− 1.5 1 LC C430S 4.3 +/− 0.2 12.3 +/− 0.3 3.6 0.29 52.6 +/− 3.6 0.98 LC 1-425 7.1 +/− 0.3 17.1 +/− 0.4 5.9 0.35 41.2 +/− 3.4 0.89 LC 1-418 0.7 +/− 0.3 26.3 +/− 0.7 0.6 0.02 38.1 +/− 3.9 0.07 LC 1-398 N.D.^(b) N.D. N.D. N.D. 79.9 +/− 1.1 N.D  BoNT/A 1.2 +/− 2.1  64 +/− 12 1.0 0.02 N.D. N.D. BoNT/A^(c) N.D.  51 +/− 15 10.2  0.20 N.D. N.D. ^(a)Rates were determined as fluorescent units/min and reported relative to values obtained for LC 1-448 ^(b)Not Determined due to poor stability velocity values for LC 1-398 could not be derived ^(c)Values from Cai and Singh (Cai and Singh, supra, 2001). High-Throughput Screening

A high-throughput assay used to screen LC/A proteolytic activity utilized the commercially available substrate SNAPtide™ (List Biologicals). SNAPtide™ is a synthetic 13-amino acid peptide that contains native cleavage site for BoNT/A. SNAPtide™ is a quenched fluorescent substrate peptide that is based on fluorescence resonance energy transfer (FRET). Initially the N-terminal fluorophore, FITC, is quenched by the C-terminal chromophore, DANCYL. Cleavage of SNAPtide™ releases the fluorophore resulting in increased fluorescence.

Liquid transfers were performed with automated dispensers. Recombinant LC/A (residues 1-425) was diluted to 300 nM in 30 mM Hepes-KOH, 190 mM potassium glutamate, 0.5% w/v BSA, pH 7.4. Test compounds were dissolved in methyl sulfoxide to a final concentration of 5 mg/ml. 100 nl of each compound was transferred into the corresponding wells of a 384 well plate containing 25 μl SNAPtide™ solution in 30 mM Hepes-KOH, 190 mM potassium glutamate, 0.5% w/v BSA, pH 7.4. 5 μl recombinant LC/A (residues 1-425) was then added and mixed for final concentrations of 50 nM LC/A and 1 μM SNAPtide™. Controls (SNAPtide™ alone/SNAPtide™+LC/A), 16 wells each, were included on every plate analyzed. After incubation for 60 minutes at 37° C. fluorescence was measured in a Perkin Elmer Envision. Data Analysis

The efficacy of each compound was determined by calculation of the activity of LC/A in the presence of compound relative to the activity of LC/A alone. Control samples—consisting of SNAPtide™ alone; were used to determine the background fluorescence in the assay and subtracted from test wells. Screening positives were defined by cut-off ranges as follows:

W (weak inhibition): Activity of LC/A in the presence of inhibitor ≦75%≧61% relative to LC/A alone.

M (medium inhibition): Activity of LC/A in the presence of inhibitor ≦60%≧246% relative to LC/A alone.

S (strong inhibition): Activity of LC/A in the presence of inhibitor ≦45% relative to LC/A alone.

Table 4 is a graph of an ELISA using antibodies to the light chain of LA/A to LC/A. This is a standard assay and can modified to be more sensitive. As conducted, this assay is within a few-folds of the sensitive of the mouse assay for BoNT.

Six compounds were identified that yielded >80% inhibition of cleavage of the SNAPtide substrate.

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1. A preparation of a catalytically active botulinum toxin light chain consisting of amino acid residues selected from the group consisting of 1-407, 1-408 and 1-409 of botulinum toxin light chain E from Clostridium botulinum strains.
 2. The preparation of claim 1 wherein the preparation consists of amino acid residues 1-408 of botulinum toxin light chain E from Clostridium botulinum strains.
 3. A method of providing a catalytically active, soluble preparation of botulinum toxin light chain E, from Clostridium botulinum strains comprising: (a) obtaining an expression vector comprising a DNA sequence encoding an amino acid sequence consisting of residues selected from the group of 1 through 407, 1 through 408 and 1 through 409 of light chain type E from Clostridium botulinum strains, and (b) expressing a polypeptide. 